Setup

FastQC Summary

Summary statistics for all libraries
Filename Total Flagged As Poor Quality Sequence Length %GC
10_FS_1_2Aligned.sortedByCoord.out.bam 23,868,599 0 22-76 46
10_FS_1Aligned.sortedByCoord.out.bam 22,556,636 0 23-76 46
11__-_5_2Aligned.sortedByCoord.out.bam 23,202,507 0 23-76 45
11__-_5Aligned.sortedByCoord.out.bam 21,951,190 0 23-76 45
12__-_4_2Aligned.sortedByCoord.out.bam 24,120,299 0 23-76 45
12__-_4Aligned.sortedByCoord.out.bam 22,807,843 0 23-76 45
13__-_3_2Aligned.sortedByCoord.out.bam 18,641,066 0 24-76 45
13__-_3Aligned.sortedByCoord.out.bam 17,605,122 0 23-76 45
14__-_2_2Aligned.sortedByCoord.out.bam 26,437,496 0 23-76 45
14__-_2Aligned.sortedByCoord.out.bam 25,045,051 0 23-76 45
15__-_1_2Aligned.sortedByCoord.out.bam 28,019,239 0 23-76 45
15__-_1Aligned.sortedByCoord.out.bam 26,516,612 0 23-76 45
1_FAD_5_2Aligned.sortedByCoord.out.bam 24,871,513 0 23-76 45
1_FAD_5Aligned.sortedByCoord.out.bam 23,538,193 0 24-76 45
2_FAD_4_2Aligned.sortedByCoord.out.bam 24,398,666 0 24-76 46
2_FAD_4Aligned.sortedByCoord.out.bam 23,157,372 0 23-76 46
3_FAD_3_2Aligned.sortedByCoord.out.bam 24,672,290 0 22-76 45
3_FAD_3Aligned.sortedByCoord.out.bam 23,380,344 0 23-76 45
4_FAD_2_2Aligned.sortedByCoord.out.bam 23,388,035 0 23-76 45
4_FAD_2Aligned.sortedByCoord.out.bam 22,123,347 0 22-76 45
5_FS_2_2Aligned.sortedByCoord.out.bam 22,457,813 0 23-76 45
5_FS_2Aligned.sortedByCoord.out.bam 21,194,114 0 23-76 45
6_FAD_1_2Aligned.sortedByCoord.out.bam 25,406,590 0 23-76 46
6_FAD_1Aligned.sortedByCoord.out.bam 24,056,971 0 23-76 46
7_FS_5_2Aligned.sortedByCoord.out.bam 27,134,036 0 23-76 45
7_FS_5Aligned.sortedByCoord.out.bam 25,628,465 0 23-76 45
8_FS_4_2Aligned.sortedByCoord.out.bam 25,057,514 0 23-76 45
8_FS_4Aligned.sortedByCoord.out.bam 23,784,746 0 23-76 45
9_FS_3_2Aligned.sortedByCoord.out.bam 22,482,650 0 24-76 45
9_FS_3Aligned.sortedByCoord.out.bam 21,210,412 0 23-76 45

Read Totals

Library Sizes ranged between 17,605,122 and 28,019,239 reads.

Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.

FastQC Summary

Summary of FastQC flags for each parameter

Per Base Sequence Quality

Heatmap showing mean base qualities for each library

Per Sequence Quality Scores

Heatmap showing mean sequence qualities for each library

Per Base Sequence Content

Heatmap of summed base distributions along each read

Per Sequence GC Content

GC Content Heatmap normalised to theoretical GC content in the Hsapiens Transcriptome

GC Content Distributions for all reads showing theoretical GC content from the Hsapiens Transcriptome

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented Summary

Total overrepresented sequences for each library

Overrepresented Sequences

## The Overrepresented_sequences module was empty in:
## 10_FS_1_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 10_FS_1Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 11__-_5_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 11__-_5Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 12__-_4_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 12__-_4Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 13__-_3_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 13__-_3Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 14__-_2_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 14__-_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 15__-_1_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 15__-_1Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 1_FAD_5_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 1_FAD_5Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 2_FAD_4_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 2_FAD_4Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 3_FAD_3_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 3_FAD_3Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 4_FAD_2_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 4_FAD_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 5_FS_2_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 5_FS_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 6_FAD_1_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 6_FAD_1Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 7_FS_5_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 7_FS_5Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 8_FS_4_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 8_FS_4Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 9_FS_3_2Aligned.sortedByCoord.out_fastqc.zipThe Overrepresented_sequences module was empty in:
## 9_FS_3Aligned.sortedByCoord.out_fastqc.zip
## No overrepresented sequences were detected by FastQC

Adapter Content

Universal Adapter Content

Kmer Content

## The Kmer_Content module was missing from:
## 10_FS_1_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 10_FS_1Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 11__-_5_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 11__-_5Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 12__-_4_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 12__-_4Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 13__-_3_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 13__-_3Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 14__-_2_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 14__-_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 15__-_1_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 15__-_1Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 1_FAD_5_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 1_FAD_5Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 2_FAD_4_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 2_FAD_4Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 3_FAD_3_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 3_FAD_3Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 4_FAD_2_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 4_FAD_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 5_FS_2_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 5_FS_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 6_FAD_1_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 6_FAD_1Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 7_FS_5_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 7_FS_5Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 8_FS_4_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 8_FS_4Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 9_FS_3_2Aligned.sortedByCoord.out_fastqc.zipThe Kmer_Content module was missing from:
## 9_FS_3Aligned.sortedByCoord.out_fastqc.zip
## No Kmers were detected by FastQC